Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0736553abd3f1ae6189c25cf0a2077/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/81/ee59bf7b04458cd61a7f26e3eea387/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/81/ee59bf7b04458cd61a7f26e3eea387/.command.run
==> STAGING COMPLETE (6 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-hha7phnk because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.
2026-06-03 05:03:04,769 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:03:05,695 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:03:05,883 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:03:23,422 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:03:23,720 - cnv_pipe.batch.run_model - INFO - Processing cluster 562 with 190 probes
2026-06-03 05:03:24,192 - cnv_pipe.batch.run_model.cluster562 - INFO - Child process started for cluster 562 with 190 probes
2026-06-03 05:06:54,774 - cnv_pipe.batch.run_model.cluster562 - INFO - Child process finished cluster 562. Wrote cluster_562_samples.csv and cluster_562_params.csv
2026-06-03 05:06:54,777 - cnv_pipe.batch.run_model - INFO - Cluster 562 finished in 211.06 seconds. Status: SUCCESS